ImageJ Documentation

• About

  • Usage
  • Contributors
  • Governance
  • Licensing

    • Open Source

      • Apache
      • BSD
      • GPL
      • LGPL
      • MIT
      • Public domain
    • Proprietary

      • BIG
  • Funding
  • Citing
  • Contributing
  • Wish list
  • Fiji

    • Using Fiji
    • Featured Fiji Projects
    • Publications
    • Links
    • Developing Fiji

      • Building Fiji from source
      • Contribution requirements
• Plugins

  • Plugin Grid
• Learn

  • Getting Started
  • User Guides
  • Tutorials
  • Tips and Tricks
  • Presentations
  • Supported Platforms

    • Windows
    • MacOS
    • Linux
    • Raspberry Pi
    • Android
  • File Formats

    • Bio-Formats
    • Video formats
    • QuickTime
    • TIFF
    • PDF
    • DICOM
    • Zeiss LSM
    • Olympus VSI
    • Opera Flex
    • FIB-SEM
  • Cookbook

    • Annotating Images
    • Color Image Processing
    • Deconvolution
    • Image Intensity Processing
    • Particle Analysis
    • Saving and Exporting
    • Stack-slice Manipulations
    • T-functions
    • Z-functions
  • Techniques

    • Colocalization
    • Deconvolution
    • Registration
    • Segmentation
    • Stitching
    • Tracking
    • Visualization
  • Scripting

    • User Input
    • Scripting Basics
    • Using Javadocs
    • Batch Processing
    • Script Editor
    • Auto Import
    • Templates
    • Running Headlessly
    • Scripting Comparisons
    • Toolbox
    • Multithreading with Clojure
    • Multithreading in Javascript
    • Chess in Jython
  • Languages

    • BeanShell Scripting
    • Groovy Scripting
    • ImageJ Macro
    • JavaScript
    • Batch Processing
    • Lisp (Clojure)
    • MATLAB
    • Python (Jython)
    • R (Renjin)
    • Ruby (JRuby)
    • Scala Scripting
• Development

  • Philosophy
  • Architecture
  • Source code
  • Project management
  • Coding style
  • Debugging
  • Tools

    • GitHub
    • Maven
    • IDEs
    • Travis
    • AppVeyor
    • Dotfiles
  • Guides

    • Writing plugins
    • ImageJ Ops
    • Contributing to a plugin
    • Distributing your plugins
    • Development lifecycle
    • Building a POM

    ---

    • Developing with Eclipse
    • Hands-on debugging
    • Adding new ops
    • Adding new formats
    • Using native libraries
    • Tips for developers
    • Tips for C++ developers
    • ImageJ 1.x plugins
    • Versioning
    • Logging
    • Uber-JARs
  • Git

    • Git in Eclipse (EGit)
    • Git mini howto
    • Git workshop
    • Git conflicts
    • Git topic branches
    • Git notes
    • Git reflogs
    • Git submodules
    • How to pinpoint regressions
    • How to publish a git repository
    • How to extract a subproject
  • ImgLib2

    • ImgLib2 Benchmarks
    • Architecture
    • FAQ
    • Tutorials

      • Getting Started
      • Accessors
      • Accessibles
      • Examples
      • Introductory Workshop
      • Advanced Programming Workshop
      • Into ImgLib - Generic Image Processing in Java
      • Creating Imglib2 images in MATLAB
    • Development

      • Developing ImgLib2
      • ImgLib2 Discussion
• Help

  • FAQ
  • Troubleshooting
  • How to write bug reports
  • Report an issue
  • Editing the ImageJ Wiki
  • Update Sites

    • Following an update site
    • Creating your own update site
    • ToS for personal update sites
    • Automatically upload your site
    • Uploading to core update sites
    • List of update sites
    • Update site FAQ